AVS and AVS/Express. - Jean M. Favre; Mario Valle (The Visualization Handbook, 2005)

Scientific Data Management for Visualization Implementation Experience. - Mario Valle; Jean M. Favre; Etienne Parkinson; Alexandre Perrig; Mohamed Fahrat (SimVis, 2005)

Representations that promote cognition: the case of chemistry visualization tools. - Mario Valle (SIGGRAPH Research Posters, 2006)

Crystal structures classifier for an evolutionary algorithm structure predictor. - Mario Valle; Artem R. Oganov (IEEE VAST, 2008)

How to predict very large and complex crystal structures. - Andriy O. Lyakhov; Artem R. Oganov; Mario Valle (Comput. Phys. Commun., 2010)

SlimCodeML: An Optimized Version of CodeML for the Branch-Site Model. - Hannes Schabauer; Mario Valle; Christoph Pacher; Heinz Stockinger; Alexandros Stamatakis; Marc Robinson-Rechavi; Ziheng Yang; Nicolas Salamin (IPDPS Workshops, 2012)

Optimization strategies for fast detection of positive selection on phylogenetic trees. - Mario Valle; Hannes Schabauer; Christoph Pacher; Heinz Stockinger; Alexandros Stamatakis; Marc Robinson-Rechavi; Nicolas Salamin (Bioinform., 2014)

Selectome update: quality control and computational improvements to a database of positive selection. - Sébastien Moretti; Balazs Laurenczy; Walid H. Gharib; Briséïs Castella; Arnold Kuzniar; Hannes Schabauer; Romain A. Studer; Mario Valle; Nicolas Salamin; Heinz Stockinger; Marc Robinson-Rechavi (Nucleic Acids Res., 2014)